Matlab Code for Reducing FA: Difference between revisions
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Return to [[Christine McLeavey & Jessica Tsang]] | Return to [[2009 Christine McLeavey & Jessica Tsang]] | ||
<br> | <br> | ||
<br>function alteredFAmasked = AlterFA(dt6, mask, densitymap, effectsize) | <br>function alteredFAmasked = AlterFA(dt6, mask, densitymap, effectsize) | ||
<br> | <br> | ||
<br> | |||
<br>fa = dtiComputeFA(dt6); | |||
<br>brainMask=readFileNifti(mask); | |||
<br>brainMask.data=double(brainMask.data); | |||
<br> | |||
<br>weightedESmap = effectsize*densitymap; % effectsize=.085 | |||
<br>alteredFA = fa.*(1-weightedESmap); | |||
<br>alteredFAmasked = alteredFA.*brainMask.data; | |||
<br> | |||
<br>% Historical: | |||
<br>% input: | <br>% input: | ||
<br>% dt6: ie dt.dt6 (can use dt=dtiLoadDt6('dt6.mat')) | <br>% dt6: ie dt.dt6 (can use dt=dtiLoadDt6('dt6.mat')) | ||
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<br>% | <br>% | ||
<br>% 2009.11.15 JT | <br>% 2009.11.15 JT | ||
<br>% effectsize = .1; | <br>% effectsize = .1; | ||
<br>% fa = dtiComputeFA(dt6); | <br>% fa = dtiComputeFA(dt6); | ||
<br>% weightedESmap = effectsize*densitymap; | <br>% weightedESmap = effectsize*densitymap; | ||
Latest revision as of 17:59, 11 December 2009
Return to 2009 Christine McLeavey & Jessica Tsang
function alteredFAmasked = AlterFA(dt6, mask, densitymap, effectsize)
fa = dtiComputeFA(dt6);
brainMask=readFileNifti(mask);
brainMask.data=double(brainMask.data);
weightedESmap = effectsize*densitymap; % effectsize=.085
alteredFA = fa.*(1-weightedESmap);
alteredFAmasked = alteredFA.*brainMask.data;
% Historical:
% input:
% dt6: ie dt.dt6 (can use dt=dtiLoadDt6('dt6.mat'))
% mask: name of brain mask, ie 'ab_mask.nii.gz'
% densitymap: image of fiber density (betw 0 and 1), i.e. using
% dtiComputeFiberDensityNOGUI
% effectsize: the factor by which to lower/raise FA (to be weighted by
% fiber density). With effectsize of 0.1, weighted effectsize =
% 0.1*fiberdensity, and newFA = origFA*[1-(weighted effectsize)]
%
% returns:
% XxYxZ image with altered fa, in image space
%
% 2009.11.15 JT
% effectsize = .1;
% fa = dtiComputeFA(dt6);
% weightedESmap = effectsize*densitymap;
% alteredFA = fa.*(1-weightedESmap);
return